Query 037220
Match_columns 101
No_of_seqs 105 out of 720
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 09:57:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037220.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037220hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02365 NAM: No apical merist 100.0 3.4E-37 7.4E-42 208.9 3.5 95 3-100 1-97 (129)
2 PHA00692 hypothetical protein 69.5 1.7 3.8E-05 26.3 0.3 10 2-11 36-45 (74)
3 PF07960 CBP4: CBP4; InterPro 60.6 4.8 0.0001 27.7 1.1 11 10-20 30-40 (128)
4 smart00707 RPEL Repeat in Dros 58.4 7.2 0.00016 19.6 1.3 13 6-18 6-18 (26)
5 PLN02417 dihydrodipicolinate s 57.6 6.4 0.00014 29.6 1.5 18 3-21 103-120 (280)
6 PF06324 Pigment_DH: Pigment-d 56.8 9.6 0.00021 17.5 1.4 14 14-27 2-17 (18)
7 cd00954 NAL N-Acetylneuraminic 55.2 6.9 0.00015 29.4 1.3 18 3-21 103-120 (288)
8 PF01473 CW_binding_1: Putativ 54.6 9.7 0.00021 17.1 1.3 8 58-65 7-14 (19)
9 PF13822 ACC_epsilon: Acyl-CoA 53.7 7.1 0.00015 23.2 0.9 9 10-18 10-18 (62)
10 TIGR02313 HpaI-NOT-DapA 2,4-di 53.3 8.4 0.00018 29.2 1.5 18 3-21 102-119 (294)
11 cd00952 CHBPH_aldolase Trans-o 51.6 8.9 0.00019 29.4 1.4 19 2-21 109-127 (309)
12 cd00950 DHDPS Dihydrodipicolin 48.1 11 0.00025 28.0 1.5 19 2-21 101-119 (284)
13 PRK03170 dihydrodipicolinate s 46.2 13 0.00029 27.8 1.6 18 3-21 103-120 (292)
14 TIGR00674 dapA dihydrodipicoli 46.0 14 0.0003 27.7 1.7 18 3-21 100-117 (285)
15 smart00265 BH4 BH4 Bcl-2 homol 45.9 30 0.00066 17.5 2.4 19 11-29 3-22 (27)
16 cd00490 Met_repressor_MetJ Met 43.4 24 0.00051 23.0 2.2 38 10-52 50-88 (103)
17 PRK04147 N-acetylneuraminate l 43.4 14 0.00031 27.8 1.4 18 3-21 106-123 (293)
18 PRK05264 transcriptional repre 41.1 24 0.00053 23.1 2.0 38 10-52 51-89 (105)
19 TIGR03249 KdgD 5-dehydro-4-deo 41.1 18 0.00038 27.4 1.6 18 3-21 106-123 (296)
20 PF02755 RPEL: RPEL repeat; I 40.6 17 0.00037 18.1 1.0 11 8-18 8-18 (26)
21 KOG3238 Chloride ion current i 39.7 35 0.00076 25.3 2.9 61 4-65 110-171 (216)
22 PF09174 Maf1: Maf1 regulator; 38.2 10 0.00023 27.0 -0.0 12 34-46 137-148 (179)
23 cd00408 DHDPS-like Dihydrodipi 37.8 21 0.00046 26.4 1.6 18 3-21 99-116 (281)
24 PF01340 MetJ: Met Apo-repress 36.4 34 0.00074 22.3 2.2 38 10-52 50-88 (104)
25 COG3060 MetJ Transcriptional r 35.8 24 0.00052 22.9 1.4 38 11-53 52-90 (105)
26 PRK03620 5-dehydro-4-deoxygluc 34.8 24 0.00052 26.8 1.5 18 3-21 108-125 (303)
27 PF02375 JmjN: jmjN domain; I 33.9 20 0.00044 18.9 0.7 18 8-25 2-21 (34)
28 PF07131 DUF1382: Protein of u 33.4 31 0.00068 20.7 1.5 14 5-18 22-39 (61)
29 cd00951 KDGDH 5-dehydro-4-deox 31.9 31 0.00067 26.0 1.6 18 3-21 101-118 (289)
30 PF00701 DHDPS: Dihydrodipicol 27.9 21 0.00046 26.6 0.1 24 4-28 104-129 (289)
31 PF13145 Rotamase_2: PPIC-type 26.8 47 0.001 20.4 1.6 14 11-24 1-15 (121)
32 KOG0107 Alternative splicing f 26.2 49 0.0011 24.2 1.8 26 3-28 45-76 (195)
33 PF02180 BH4: Bcl-2 homology r 25.2 68 0.0015 16.2 1.7 18 12-29 4-22 (27)
34 PF04700 Baculo_gp41: Structur 24.4 46 0.001 24.3 1.4 19 12-30 6-27 (186)
35 PRK14390 hypothetical protein; 22.6 42 0.0009 20.3 0.7 15 3-17 13-27 (63)
36 PF09758 FPL: Uncharacterised 21.5 50 0.0011 23.2 1.0 28 7-34 79-108 (149)
37 PF02436 PYC_OADA: Conserved c 21.3 78 0.0017 23.0 2.1 17 10-26 135-152 (196)
38 PF12913 SH3_6: SH3 domain of 20.3 41 0.0009 19.6 0.4 40 22-66 6-45 (54)
39 PF15374 CCDC71L: Coiled-coil 20.2 1E+02 0.0022 24.9 2.6 41 4-46 29-69 (376)
No 1
>PF02365 NAM: No apical meristem (NAM) protein; InterPro: IPR003441 The NAC domain (for Petunia hybrida (Petunia) NAM and for Arabidopsis ATAF1, ATAF2, and CUC2) is an N-terminal module of ~160 amino acids, which is found in proteins of the NAC family of plant-specific transcriptional regulators (no apical meristem (NAM) proteins) []. NAC proteins are involved in developmental processes, including formation of the shoot apical meristem, floral organs and lateral shoots, as well as in plant hormonal control and defence. The NAC domain is accompanied by diverse C-terminal transcriptional activation domains. The NAC domain has been shown to be a DNA-binding domain (DBD) and a dimerization domain [,]. The NAC domain can be subdivided into five subdomains (A-E). Each subdomain is distinguishable by blocks of heterogeneous amino acids or gaps. While the NAC domains were rich in basic amino acids (R, K and H) as a whole, the distribution of positive and negative amino acids in each subdomain were unequal. Subdomains C and D are rich in basic amino acids but poor in acidic amino acids, while subdomain B contains a high proportion of acidic amino acids. Putative nuclear localization signals (NLS) have been detected in subdomains C and D []. The DBD is contained within a 60 amino acid region located within subdomains D and E []. The overall structure of the NAC domain monomer consists of a very twisted antiparallel beta-sheet, which packs against an N-terminal alpha-helix on one side and one shorter helix on the other side surrounded by a few helical elements. The structure suggests that the NAC domain mediates dimerization through conserved interactions including a salt bridge, and DNA binding through the NAC dimer face rich in positive charges [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1UT4_A 3SWM_B 4DUL_B 3SWP_D 1UT7_B 3ULX_A.
Probab=100.00 E-value=3.4e-37 Score=208.90 Aligned_cols=95 Identities=32% Similarity=0.542 Sum_probs=66.0
Q ss_pred CCCCceecCChHHHHHHHH-HhhcCCCCCC-CCceeccCCCCCCccCcccccccCCCCceEEEEeccccccCCCCCcccc
Q 037220 3 NLMGYKFQPSNEQILYLMV-EKRLNPHFSH-HPIKDIVDICSLEPGDLATASKTESEDQVWYFFCEPHHKYMKSNRAHRR 80 (101)
Q Consensus 3 lppG~rF~PTDeELi~~yL-~Ki~g~~~~~-~~I~e~~Dvy~~~Pw~L~~~~~~~~~~~~wYFF~~~~~k~~~g~R~~R~ 80 (101)
|||||||+|||+|||.+|| +|++|.+++. ++|.++ |||+.+||+|+... .+.+.+|||||++++++.++.|.+|+
T Consensus 1 LP~G~rF~PtD~ELi~~yL~~k~~g~~~~~~~~i~~~-Diy~~~P~~L~~~~--~~~~~~~yFF~~~~~~~~~~~r~~R~ 77 (129)
T PF02365_consen 1 LPPGFRFRPTDEELINHYLRPKILGEPLPCEDVIHDV-DIYSAHPWELPAKF--KGGDEEWYFFSPRKKKYPNGGRPNRV 77 (129)
T ss_dssp --TTEEE---HHHHHHCTHHHHHTT-HHCS-CHSEE---GGGS-GGGCHHHS--SS-SSEEEEEEE----------S-EE
T ss_pred CCCceEecCChHHHHHHHHHHHhcCCCCCcccceeec-ccCccChHHhhhhc--cCCCceEEEEEecccccCCccccccc
Confidence 7999999999999999999 9999999887 789999 99999999999422 23457999999999999999999999
Q ss_pred CCCCeeeeeccceeeecCCC
Q 037220 81 TKAGHGKITSKDSQIKARNG 100 (101)
Q Consensus 81 ~~~G~Wk~~g~~~~I~~~~g 100 (101)
+++|+||++|+.++|.+.+|
T Consensus 78 ~~~G~Wk~~g~~~~i~~~~g 97 (129)
T PF02365_consen 78 TGGGYWKSTGKEKPIKDPGG 97 (129)
T ss_dssp ETTEEEEEECEEEEEEE-TT
T ss_pred ccceEEeecccccccccccc
Confidence 99999999999999998543
No 2
>PHA00692 hypothetical protein
Probab=69.45 E-value=1.7 Score=26.26 Aligned_cols=10 Identities=30% Similarity=0.544 Sum_probs=8.0
Q ss_pred CCCCCceecC
Q 037220 2 ENLMGYKFQP 11 (101)
Q Consensus 2 ~lppG~rF~P 11 (101)
+.||||||--
T Consensus 36 eyppgfrfgg 45 (74)
T PHA00692 36 EYPPGFRFGG 45 (74)
T ss_pred ecCCCccccc
Confidence 6799999953
No 3
>PF07960 CBP4: CBP4; InterPro: IPR012420 The CBP4 gene in Saccharomyces cerevisiae is essential for the expression and activity of ubiquinol-cytochrome c reductase [, ]. This family appears to be fungal specific.
Probab=60.59 E-value=4.8 Score=27.69 Aligned_cols=11 Identities=18% Similarity=0.474 Sum_probs=9.8
Q ss_pred cCChHHHHHHH
Q 037220 10 QPSNEQILYLM 20 (101)
Q Consensus 10 ~PTDeELi~~y 20 (101)
.||||||+.-|
T Consensus 30 tPTeEeL~~r~ 40 (128)
T PF07960_consen 30 TPTEEELFKRY 40 (128)
T ss_pred CCCHHHHHHhc
Confidence 69999999876
No 4
>smart00707 RPEL Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2.
Probab=58.41 E-value=7.2 Score=19.59 Aligned_cols=13 Identities=15% Similarity=0.256 Sum_probs=10.8
Q ss_pred CceecCChHHHHH
Q 037220 6 GYKFQPSNEQILY 18 (101)
Q Consensus 6 G~rF~PTDeELi~ 18 (101)
....+||-||||.
T Consensus 6 kl~~RP~~eeLv~ 18 (26)
T smart00707 6 KLSQRPTREELEE 18 (26)
T ss_pred HHHcCCCHHHHHH
Confidence 3468999999997
No 5
>PLN02417 dihydrodipicolinate synthase
Probab=57.59 E-value=6.4 Score=29.63 Aligned_cols=18 Identities=17% Similarity=0.015 Sum_probs=14.8
Q ss_pred CCCCceecCChHHHHHHHH
Q 037220 3 NLMGYKFQPSNEQILYLMV 21 (101)
Q Consensus 3 lppG~rF~PTDeELi~~yL 21 (101)
.|| +.|.||++||+.||-
T Consensus 103 ~~P-~y~~~~~~~i~~~f~ 120 (280)
T PLN02417 103 INP-YYGKTSQEGLIKHFE 120 (280)
T ss_pred cCC-ccCCCCHHHHHHHHH
Confidence 466 458999999999886
No 6
>PF06324 Pigment_DH: Pigment-dispersing hormone (PDH); InterPro: IPR009396 This family consists of several eukaryotic pigment-dispersing hormone (PDH) proteins. The pigment-dispersing hormone (PDH) is produced in the eyestalks of Crustacea where it induces light-adapting movements of pigment in the compound eye and regulates the pigment dispersion in the chromatophores [].; GO: 0005179 hormone activity, 0009416 response to light stimulus, 0005576 extracellular region
Probab=56.77 E-value=9.6 Score=17.53 Aligned_cols=14 Identities=14% Similarity=0.363 Sum_probs=11.0
Q ss_pred HHHHHHHH--HhhcCC
Q 037220 14 EQILYLMV--EKRLNP 27 (101)
Q Consensus 14 eELi~~yL--~Ki~g~ 27 (101)
-|||+..| ||.++.
T Consensus 2 selINslLglpk~m~d 17 (18)
T PF06324_consen 2 SELINSLLGLPKVMND 17 (18)
T ss_pred hHHHHHHHcchhhccc
Confidence 48999998 887753
No 7
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid). It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
Probab=55.19 E-value=6.9 Score=29.44 Aligned_cols=18 Identities=17% Similarity=-0.177 Sum_probs=14.3
Q ss_pred CCCCceecCChHHHHHHHH
Q 037220 3 NLMGYKFQPSNEQILYLMV 21 (101)
Q Consensus 3 lppG~rF~PTDeELi~~yL 21 (101)
+||- .|.||++||+.||.
T Consensus 103 ~~P~-y~~~~~~~i~~~~~ 120 (288)
T cd00954 103 ITPF-YYKFSFEEIKDYYR 120 (288)
T ss_pred eCCC-CCCCCHHHHHHHHH
Confidence 4554 47899999999887
No 8
>PF01473 CW_binding_1: Putative cell wall binding repeat; InterPro: IPR018337 The cell wall-binding repeat (CW) is an about 20 amino acid residue module, essentially found in two bacterial Gram-positive protein families; the choline binding proteins and glucosyltransferases (2.4.1.5 from EC). In choline-binding proteins cell wall binding repeats bind to choline moieties of both teichoic and lipoteichoic acids, two components peculiar to the cell surface of Gram-positive bacteria [, ]. In glucosyltransferases the region spanning the CW repeats is a glucan binding domain []. Several crystal structures of CW have been solved [, ]. In the choline binding protein LytA, the repeats adopt a solenoid fold consisting exclusively of beta-hairpins that stack to form a left-handed superhelix with a boomerang-like shape. The choline groups bind between beta-hairpin 'steps' of the superhelix []. In Cpl-1 CW repeats assemble in two sub-domains: an N-terminal superhelical moiety similar to the LytA one and a C-terminal beta-sheet involved in interactions with the lysozyme domain. Choline is bound between repeats 1 and 2, and, 2 and 3 of the superhelical sub-domain []. Some proteins known to contain cell-wall binding repeats include: Pneumococcal N-acetylmuramoyl-L-alanine amidase (autolysin, lytA) (3.5.1.28 from EC). It is a surface-exposed enzyme that rules the self-destruction of pneumococcal cells through degradation of their peptidoglycan backbone. It mediates the release of toxic substances that damage the host tissues. Pneumococcal endo-beta-N-acetylglucosaminidase (lytB) (3.2.1.96 from EC). It plays an important role in cell wall degradation and cell separation. Pneumococcal teichoic acid phosphorylcholine esterase (pce or cbpE), a cell wall hydrolase important for cellular adhesion and colonisation. Lactobacillales glucosyltransferase. It catalyses the transfer of glucosyl units from the cleavage of sucrose to a growing chain of glucan. Clostridium difficile toxin A (tcdA) and toxin B (tcdb). They are the causative agents of the antibiotic-associated pseudomembranous colitis. They are intracellular acting toxins that reach their targets after receptor-mediated endocytosis. Clostridium acetobutylicum cspA protein. Siphoviridae bacteriophages N-acetylmuramoyl-L-alanine amidase. It lyses the bacterial host cell wall. Podoviridae lysozyme protein (cpl-1). It is capable of digesting the pneumococcal cell wall. The cell wall binding repeats are also known as the choline-binding repeats (ChBr) or the choline-binding domain (ChBD). ; PDB: 1GVM_C 2BML_B 1HCX_A 1OBA_A 1H09_A 2J8F_A 2IXU_A 2J8G_A 2IXV_A 2X8O_A ....
Probab=54.63 E-value=9.7 Score=17.08 Aligned_cols=8 Identities=38% Similarity=1.244 Sum_probs=6.3
Q ss_pred CceEEEEe
Q 037220 58 DQVWYFFC 65 (101)
Q Consensus 58 ~~~wYFF~ 65 (101)
++.||||.
T Consensus 7 ~~~wYy~~ 14 (19)
T PF01473_consen 7 NGNWYYFD 14 (19)
T ss_dssp TTEEEEET
T ss_pred CCEEEEeC
Confidence 37899994
No 9
>PF13822 ACC_epsilon: Acyl-CoA carboxylase epsilon subunit
Probab=53.67 E-value=7.1 Score=23.22 Aligned_cols=9 Identities=22% Similarity=0.619 Sum_probs=7.4
Q ss_pred cCChHHHHH
Q 037220 10 QPSNEQILY 18 (101)
Q Consensus 10 ~PTDeELi~ 18 (101)
+||||||--
T Consensus 10 nPt~eElAA 18 (62)
T PF13822_consen 10 NPTDEELAA 18 (62)
T ss_pred CCCHHHHHH
Confidence 799999854
No 10
>TIGR02313 HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase. This model represents a subset of the DapA (dihydrodipicolinate synthase) family which has apparently evolved a separate function. The product of DapA, dihydrodipicolinate, results from the non-enzymatic cyclization and dehydration of 6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is different from the substrate of this reaction only in the presence of the amino group. In the absence of this amino group, and running the reaction in the opposite direction, the reaction corresponds to the HpaI aldolase component of the 4-hydroxyphenylacetic acid catabolism pathway (see TIGR02311). At present, this variant of DapA is found only in Oceanobacillus iheyensis HTE831 and Thermus thermophilus HB27. In both of these cases, one or more other DapA genes can be found and the one identified by this model is part of an operon for 4-hydroxyphenylacetic acid catabolism.
Probab=53.34 E-value=8.4 Score=29.23 Aligned_cols=18 Identities=17% Similarity=0.209 Sum_probs=14.7
Q ss_pred CCCCceecCChHHHHHHHH
Q 037220 3 NLMGYKFQPSNEQILYLMV 21 (101)
Q Consensus 3 lppG~rF~PTDeELi~~yL 21 (101)
.||-| |.||++||+.||-
T Consensus 102 ~pP~y-~~~~~~~l~~~f~ 119 (294)
T TIGR02313 102 IVPYY-NKPNQEALYDHFA 119 (294)
T ss_pred cCccC-CCCCHHHHHHHHH
Confidence 45554 8999999999886
No 11
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=51.56 E-value=8.9 Score=29.35 Aligned_cols=19 Identities=0% Similarity=-0.192 Sum_probs=15.4
Q ss_pred CCCCCceecCChHHHHHHHH
Q 037220 2 ENLMGYKFQPSNEQILYLMV 21 (101)
Q Consensus 2 ~lppG~rF~PTDeELi~~yL 21 (101)
-+|| |.|.||++||+.||-
T Consensus 109 v~~P-~y~~~~~~~l~~yf~ 127 (309)
T cd00952 109 LGRP-MWLPLDVDTAVQFYR 127 (309)
T ss_pred ECCC-cCCCCCHHHHHHHHH
Confidence 3566 568999999999885
No 12
>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
Probab=48.13 E-value=11 Score=27.98 Aligned_cols=19 Identities=21% Similarity=0.109 Sum_probs=14.8
Q ss_pred CCCCCceecCChHHHHHHHH
Q 037220 2 ENLMGYKFQPSNEQILYLMV 21 (101)
Q Consensus 2 ~lppG~rF~PTDeELi~~yL 21 (101)
-.||.| |.||++||+.||-
T Consensus 101 ~~~P~~-~~~~~~~l~~~~~ 119 (284)
T cd00950 101 VVTPYY-NKPSQEGLYAHFK 119 (284)
T ss_pred Eccccc-CCCCHHHHHHHHH
Confidence 356754 8899999998775
No 13
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=46.18 E-value=13 Score=27.82 Aligned_cols=18 Identities=17% Similarity=0.146 Sum_probs=14.6
Q ss_pred CCCCceecCChHHHHHHHH
Q 037220 3 NLMGYKFQPSNEQILYLMV 21 (101)
Q Consensus 3 lppG~rF~PTDeELi~~yL 21 (101)
+||-| |.||++||+.||-
T Consensus 103 ~pP~~-~~~~~~~i~~~~~ 120 (292)
T PRK03170 103 VTPYY-NKPTQEGLYQHFK 120 (292)
T ss_pred CCCcC-CCCCHHHHHHHHH
Confidence 56655 8999999999775
No 14
>TIGR00674 dapA dihydrodipicolinate synthase. Dihydrodipicolinate synthase is a homotetrameric enzyme of lysine biosynthesis. E. coli has several paralogs closely related to dihydrodipicoline synthase (DapA), as well as the more distant N-acetylneuraminate lyase. In Pyrococcus horikoshii, the bidirectional best hit with E. coli is to an uncharacterized paralog of DapA, not DapA itself, and it is omitted from the seed. The putative members from the Chlamydias (pathogens with a parasitic metabolism) are easily the most divergent members of the multiple alignment.
Probab=45.96 E-value=14 Score=27.72 Aligned_cols=18 Identities=17% Similarity=0.146 Sum_probs=14.6
Q ss_pred CCCCceecCChHHHHHHHH
Q 037220 3 NLMGYKFQPSNEQILYLMV 21 (101)
Q Consensus 3 lppG~rF~PTDeELi~~yL 21 (101)
+||-| |.||++||+.||.
T Consensus 100 ~pP~y-~~~~~~~i~~~~~ 117 (285)
T TIGR00674 100 VTPYY-NKPTQEGLYQHFK 117 (285)
T ss_pred cCCcC-CCCCHHHHHHHHH
Confidence 45555 7899999999887
No 15
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=45.87 E-value=30 Score=17.47 Aligned_cols=19 Identities=16% Similarity=0.116 Sum_probs=14.7
Q ss_pred CChHHHHHHHH-HhhcCCCC
Q 037220 11 PSNEQILYLMV-EKRLNPHF 29 (101)
Q Consensus 11 PTDeELi~~yL-~Ki~g~~~ 29 (101)
.+-.|||..|+ -|+.-...
T Consensus 3 ~~nRelV~~yv~yKLsQrgy 22 (27)
T smart00265 3 LDNRELVVDYVTYKLSQNGY 22 (27)
T ss_pred cchHHHHHHHHHHHHhhcCC
Confidence 35689999999 88876544
No 16
>cd00490 Met_repressor_MetJ Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ forms sufficiently strong interactions with the sugar-phosphate backbone to accomodate sequence variation in natural operators. However, it is very sensitive to particular base changes in the operator. MetJ exists as a homodimer.
Probab=43.40 E-value=24 Score=23.03 Aligned_cols=38 Identities=11% Similarity=0.224 Sum_probs=28.6
Q ss_pred cCChHHHHHH-HHHhhcCCCCCCCCceeccCCCCCCccCccccc
Q 037220 10 QPSNEQILYL-MVEKRLNPHFSHHPIKDIVDICSLEPGDLATAS 52 (101)
Q Consensus 10 ~PTDeELi~~-yL~Ki~g~~~~~~~I~e~~Dvy~~~Pw~L~~~~ 52 (101)
+-|.-||++. ||.-..|+|+|.+ . |+-...|..+|+..
T Consensus 50 HATNSELLCEAFLHAfTGQPLP~D----~-Dl~K~~~d~iP~~a 88 (103)
T cd00490 50 HATNSELLCEAFLHAFTGQPLPDD----A-DLRKERSDEIPEAA 88 (103)
T ss_pred hcccHHHHHHHHHHHhcCCCCCCh----h-hhhhcCcccccHHH
Confidence 3466777765 5588899999974 3 88888899998754
No 17
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=43.35 E-value=14 Score=27.77 Aligned_cols=18 Identities=17% Similarity=-0.186 Sum_probs=14.0
Q ss_pred CCCCceecCChHHHHHHHH
Q 037220 3 NLMGYKFQPSNEQILYLMV 21 (101)
Q Consensus 3 lppG~rF~PTDeELi~~yL 21 (101)
.||- -|.||++||+.||-
T Consensus 106 ~~P~-y~~~~~~~l~~~f~ 123 (293)
T PRK04147 106 VTPF-YYPFSFEEICDYYR 123 (293)
T ss_pred eCCc-CCCCCHHHHHHHHH
Confidence 3444 48999999999886
No 18
>PRK05264 transcriptional repressor protein MetJ; Provisional
Probab=41.15 E-value=24 Score=23.08 Aligned_cols=38 Identities=11% Similarity=0.207 Sum_probs=28.5
Q ss_pred cCChHHHHHH-HHHhhcCCCCCCCCceeccCCCCCCccCccccc
Q 037220 10 QPSNEQILYL-MVEKRLNPHFSHHPIKDIVDICSLEPGDLATAS 52 (101)
Q Consensus 10 ~PTDeELi~~-yL~Ki~g~~~~~~~I~e~~Dvy~~~Pw~L~~~~ 52 (101)
+-|.-||++. ||.-..|+|||.+ . |+-...|.++|+..
T Consensus 51 HATNSELLCEAFLHA~TGQPLP~D----~-Dl~Kd~~d~ip~~a 89 (105)
T PRK05264 51 HATNSELLCEAFLHAFTGQPLPDD----E-DLRKERSDEIPEAA 89 (105)
T ss_pred hcccHHHHHHHHHHHHcCCCCCCh----h-hhhhcCcccchHHH
Confidence 3466777765 5588899999974 3 88888899998754
No 19
>TIGR03249 KdgD 5-dehydro-4-deoxyglucarate dehydratase. 5-dehydro-4-deoxyglucarate dehydratase not only catalyzes the dehydration of the substrate (diol to ketone + water), but causes the decarboxylation of the intermediate product to yield 2-oxoglutarate semialdehyde (2,5-dioxopentanoate). The gene for the enzyme is usually observed in the vicinity of transporters and dehydratases handling D-galactarate and D-gluconate as well as aldehyde dehydrogenases which convert the product to alpha-ketoglutarate.
Probab=41.05 E-value=18 Score=27.37 Aligned_cols=18 Identities=11% Similarity=0.002 Sum_probs=14.1
Q ss_pred CCCCceecCChHHHHHHHH
Q 037220 3 NLMGYKFQPSNEQILYLMV 21 (101)
Q Consensus 3 lppG~rF~PTDeELi~~yL 21 (101)
+|| |-|.||+++|+.||-
T Consensus 106 ~pP-~y~~~s~~~i~~~f~ 123 (296)
T TIGR03249 106 LPP-YLINGEQEGLYAHVE 123 (296)
T ss_pred CCC-CCCCCCHHHHHHHHH
Confidence 455 457899999999886
No 20
>PF02755 RPEL: RPEL repeat; InterPro: IPR004018 The RPEL repeat is named after four conserved amino acids it contains. The function of the RPEL repeat is unknown however it might be a DNA binding repeat based on the observation that Q9VZY2 from SWISSPROT contains a SAP domain that is also implicated in DNA binding.; PDB: 2YJE_M 2V52_M 2YJF_M 2V51_E.
Probab=40.63 E-value=17 Score=18.12 Aligned_cols=11 Identities=18% Similarity=0.474 Sum_probs=6.4
Q ss_pred eecCChHHHHH
Q 037220 8 KFQPSNEQILY 18 (101)
Q Consensus 8 rF~PTDeELi~ 18 (101)
..+|+-+|||.
T Consensus 8 ~~RP~~~eLv~ 18 (26)
T PF02755_consen 8 SQRPTREELVE 18 (26)
T ss_dssp HT---HHHHHH
T ss_pred hcCCCHHHHHH
Confidence 35899999997
No 21
>KOG3238 consensus Chloride ion current inducer protein [Inorganic ion transport and metabolism]
Probab=39.67 E-value=35 Score=25.34 Aligned_cols=61 Identities=18% Similarity=0.230 Sum_probs=34.9
Q ss_pred CCCceecCChHHHHHHHH-HhhcCCCCCCCCceeccCCCCCCccCcccccccCCCCceEEEEe
Q 037220 4 LMGYKFQPSNEQILYLMV-EKRLNPHFSHHPIKDIVDICSLEPGDLATASKTESEDQVWYFFC 65 (101)
Q Consensus 4 ppG~rF~PTDeELi~~yL-~Ki~g~~~~~~~I~e~~Dvy~~~Pw~L~~~~~~~~~~~~wYFF~ 65 (101)
--+|||+|+|.--+.-.- ...-...+-.....+. +-|.-+=|+.-.....+++...||=+.
T Consensus 110 i~e~rfvpsDk~~l~a~f~qfcecqel~p~P~ED~-~~~dgee~~mea~d~~~gDs~~~~t~d 171 (216)
T KOG3238|consen 110 ITEFRFVPSDKSALEAMFTQFCECQELNPDPDEDE-DDYDGEEYDMEAHDAGQGDSPNSYTYD 171 (216)
T ss_pred cccceecCCchhHHHHHHHHHHhhhhcCCCccccc-cccccchhhhhhhhccCCCCccccccc
Confidence 358999999987665444 4444433322224555 667766676655433344445666543
No 22
>PF09174 Maf1: Maf1 regulator; InterPro: IPR015257 Maf1 is a negative regulator of RNA polymerase III [, ]. It targets the initiation factor TFIIIB []. ; PDB: 3NR5_A.
Probab=38.24 E-value=10 Score=26.99 Aligned_cols=12 Identities=50% Similarity=0.794 Sum_probs=7.2
Q ss_pred ceeccCCCCCCcc
Q 037220 34 IKDIVDICSLEPG 46 (101)
Q Consensus 34 I~e~~Dvy~~~Pw 46 (101)
+.++ |||.+.|.
T Consensus 137 l~~C-~iYsy~pd 148 (179)
T PF09174_consen 137 LKDC-DIYSYNPD 148 (179)
T ss_dssp GGG--EEEEE---
T ss_pred ccCc-eEEEEccC
Confidence 6888 99999983
No 23
>cd00408 DHDPS-like Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.
Probab=37.85 E-value=21 Score=26.39 Aligned_cols=18 Identities=28% Similarity=0.187 Sum_probs=13.8
Q ss_pred CCCCceecCChHHHHHHHH
Q 037220 3 NLMGYKFQPSNEQILYLMV 21 (101)
Q Consensus 3 lppG~rF~PTDeELi~~yL 21 (101)
+||-| |.||++|++.||.
T Consensus 99 ~pP~y-~~~~~~~~~~~~~ 116 (281)
T cd00408 99 VPPYY-NKPSQEGIVAHFK 116 (281)
T ss_pred CCCcC-CCCCHHHHHHHHH
Confidence 45544 6799999999886
No 24
>PF01340 MetJ: Met Apo-repressor, MetJ; InterPro: IPR002084 Binding of a specific DNA fragment and S-adenosyl methionine (SAM) co-repressor molecules to the Escherichia coli methionine repressor (MetJ) leads to a significant reduction in dynamic flexibility of the ternary complex, with considerable entropy-enthalpy compensation, not necessarily involving any overall conformational change []. MetJ is a regulatory protein which when combined with S-adenosylmethionine (SAM) represses the expression of the methionine regulon and of enzymes involved in SAM synthesis. It is also autoregulated. The crystal structure of the met repressor-operator complex shows two dimeric repressor molecules bound to adjacent sites 8 base pairs apart on an 18-base-pair DNA fragment. Sequence specificity is achieved by insertion of double-stranded antiparallel protein beta-ribbons into the major groove of B-form DNA, with direct hydrogen-bonding between amino-acid side chains and the base pairs. The repressor also recognises sequence-dependent distortion or flexibility of the operator phosphate backbone, conferring specificity even for inaccessible base pairs [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006555 methionine metabolic process; PDB: 1MJO_D 1CMB_A 1MJQ_C 1CMC_B 1MJK_A 1MJ2_A 1MJP_A 1MJM_B 1CMA_B 1MJL_A ....
Probab=36.35 E-value=34 Score=22.31 Aligned_cols=38 Identities=11% Similarity=0.229 Sum_probs=21.9
Q ss_pred cCChHHHHHH-HHHhhcCCCCCCCCceeccCCCCCCccCccccc
Q 037220 10 QPSNEQILYL-MVEKRLNPHFSHHPIKDIVDICSLEPGDLATAS 52 (101)
Q Consensus 10 ~PTDeELi~~-yL~Ki~g~~~~~~~I~e~~Dvy~~~Pw~L~~~~ 52 (101)
+-|.-||++. ||.-..|+|+|.+ . |+-...|..+|...
T Consensus 50 HATNSeLLcEAFLHAfTGQPLP~D----~-dl~kd~~d~ip~~~ 88 (104)
T PF01340_consen 50 HATNSELLCEAFLHAFTGQPLPTD----D-DLRKDRPDEIPAEA 88 (104)
T ss_dssp S-SHHHHHHHHHHHHHH------T----T-GGGSTSGSSS-HHH
T ss_pred hcccHHHHHHHHHHHhcCCCCCCh----h-hhhhcCCccchHHH
Confidence 3467777765 5588899999874 3 88888999999754
No 25
>COG3060 MetJ Transcriptional regulator of met regulon [Transcription / Amino acid transport and metabolism]
Probab=35.82 E-value=24 Score=22.86 Aligned_cols=38 Identities=16% Similarity=0.273 Sum_probs=28.2
Q ss_pred CChHHHHHH-HHHhhcCCCCCCCCceeccCCCCCCccCcccccc
Q 037220 11 PSNEQILYL-MVEKRLNPHFSHHPIKDIVDICSLEPGDLATASK 53 (101)
Q Consensus 11 PTDeELi~~-yL~Ki~g~~~~~~~I~e~~Dvy~~~Pw~L~~~~~ 53 (101)
-|..||++. ||.-..|+|+|. +. |+-..-|.++|+.++
T Consensus 52 atnsellceaflhaftgqplpt----d~-dl~ker~deipe~ak 90 (105)
T COG3060 52 ATNSELLCEAFLHAFTGQPLPT----DA-DLRKERSDEIPEAAK 90 (105)
T ss_pred hhhHHHHHHHHHHHHcCCCCCC----cH-HHHHhccccchHHHH
Confidence 466777765 448889999986 45 788788889987653
No 26
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=34.79 E-value=24 Score=26.84 Aligned_cols=18 Identities=11% Similarity=-0.022 Sum_probs=14.5
Q ss_pred CCCCceecCChHHHHHHHH
Q 037220 3 NLMGYKFQPSNEQILYLMV 21 (101)
Q Consensus 3 lppG~rF~PTDeELi~~yL 21 (101)
+|| |.|.||+++|+.||-
T Consensus 108 ~pP-~y~~~~~~~i~~~f~ 125 (303)
T PRK03620 108 LPP-YLTEAPQEGLAAHVE 125 (303)
T ss_pred CCC-CCCCCCHHHHHHHHH
Confidence 455 567899999999886
No 27
>PF02375 JmjN: jmjN domain; InterPro: IPR003349 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with JmjC (see IPR003347 from INTERPRO).; PDB: 2XML_A 2W2I_C 3DXT_A 3DXU_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=33.87 E-value=20 Score=18.92 Aligned_cols=18 Identities=17% Similarity=0.143 Sum_probs=8.3
Q ss_pred eecCChHHHHHH--HHHhhc
Q 037220 8 KFQPSNEQILYL--MVEKRL 25 (101)
Q Consensus 8 rF~PTDeELi~~--yL~Ki~ 25 (101)
-|+||.||--+. |+.++.
T Consensus 2 vf~Pt~eEF~dp~~yi~~i~ 21 (34)
T PF02375_consen 2 VFYPTMEEFKDPIKYISSIE 21 (34)
T ss_dssp EE---HHHHS-HHHHHHHHH
T ss_pred cccCCHHHHhCHHHHHHHHH
Confidence 389999997543 444443
No 28
>PF07131 DUF1382: Protein of unknown function (DUF1382); InterPro: IPR009814 This entry is represented by Bacteriophage lambda, Xis. This entry overlaps with IPR009750, both representing lambda Xis. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Escherichia coli and Bacteriophage lambda-like proteins of around 60 residues in length. The function of this family is unknown.
Probab=33.38 E-value=31 Score=20.71 Aligned_cols=14 Identities=29% Similarity=0.724 Sum_probs=10.6
Q ss_pred CCceecC----ChHHHHH
Q 037220 5 MGYKFQP----SNEQILY 18 (101)
Q Consensus 5 pG~rF~P----TDeELi~ 18 (101)
.|+||.| ||+|+..
T Consensus 22 ~GIRFVpiPv~~dee~~~ 39 (61)
T PF07131_consen 22 IGIRFVPIPVVTDEEFHT 39 (61)
T ss_pred cCceeeccccccHHHHHH
Confidence 5999999 6777643
No 29
>cd00951 KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases. The enzyme is involved in glucarate metabolism, and its mechanism presumbly involves a Schiff-base intermediate similar to members of DHDPS family. While in the case of Pseudomonas sp. 5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to 2,5-dioxopentanoate, in certain species of Enterobacteriaceae it is degraded instead to pyruvate and glycerate.
Probab=31.90 E-value=31 Score=26.00 Aligned_cols=18 Identities=6% Similarity=-0.217 Sum_probs=13.8
Q ss_pred CCCCceecCChHHHHHHHH
Q 037220 3 NLMGYKFQPSNEQILYLMV 21 (101)
Q Consensus 3 lppG~rF~PTDeELi~~yL 21 (101)
+||- .|.|++++++.||-
T Consensus 101 ~pP~-y~~~~~~~i~~~f~ 118 (289)
T cd00951 101 LPPY-LTEAPQEGLYAHVE 118 (289)
T ss_pred CCCC-CCCCCHHHHHHHHH
Confidence 3444 47899999999885
No 30
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=27.85 E-value=21 Score=26.63 Aligned_cols=24 Identities=21% Similarity=0.350 Sum_probs=17.2
Q ss_pred CCCceecCChHHHHHHHH--HhhcCCC
Q 037220 4 LMGYKFQPSNEQILYLMV--EKRLNPH 28 (101)
Q Consensus 4 ppG~rF~PTDeELi~~yL--~Ki~g~~ 28 (101)
|| +.|.||++||+.||. -.+.+.|
T Consensus 104 ~P-~~~~~s~~~l~~y~~~ia~~~~~p 129 (289)
T PF00701_consen 104 PP-YYFKPSQEELIDYFRAIADATDLP 129 (289)
T ss_dssp ES-TSSSCCHHHHHHHHHHHHHHSSSE
T ss_pred cc-ccccchhhHHHHHHHHHHhhcCCC
Confidence 44 568899999999887 4444433
No 31
>PF13145 Rotamase_2: PPIC-type PPIASE domain; PDB: 3NRK_A 2KGJ_A.
Probab=26.84 E-value=47 Score=20.37 Aligned_cols=14 Identities=14% Similarity=0.145 Sum_probs=8.1
Q ss_pred CChHHHHHHHH-Hhh
Q 037220 11 PSNEQILYLMV-EKR 24 (101)
Q Consensus 11 PTDeELi~~yL-~Ki 24 (101)
|||+||-.||- ++-
T Consensus 1 vte~el~~yY~~n~~ 15 (121)
T PF13145_consen 1 VTEEELRAYYEENKD 15 (121)
T ss_dssp --HHHHHHHHHH-HH
T ss_pred CCHHHHHHHHHHHHH
Confidence 67888888777 544
No 32
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=26.16 E-value=49 Score=24.25 Aligned_cols=26 Identities=15% Similarity=0.285 Sum_probs=21.9
Q ss_pred CCCCcee----cCChHHHHHHHH--HhhcCCC
Q 037220 3 NLMGYKF----QPSNEQILYLMV--EKRLNPH 28 (101)
Q Consensus 3 lppG~rF----~PTDeELi~~yL--~Ki~g~~ 28 (101)
.||||-| +|-|.|=.+.|| +.+.|..
T Consensus 45 nPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r 76 (195)
T KOG0107|consen 45 NPPGFAFVEFEDPRDAEDAVRYLDGKDICGSR 76 (195)
T ss_pred cCCCceEEeccCcccHHHHHhhcCCccccCce
Confidence 5999999 699999999999 7777743
No 33
>PF02180 BH4: Bcl-2 homology region 4; InterPro: IPR003093 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. Bcl-2 proteins are central regulators of caspase activation, and play a key role in cell death by regulating the integrity of the mitochondrial and endoplasmic reticulum (ER) membranes []. At least 20 Bcl-2 proteins have been reported in mammals, and several others have been identified in viruses. Bcl-2 family proteins fall roughly into three subtypes, which either promote cell survival (anti-apoptotic) or trigger cell death (pro-apoptotic). All members contain at least one of four conserved motifs, termed Bcl-2 Homology (BH) domains. Bcl-2 subfamily proteins, which contain at least BH1 and BH2, promote cell survival by inhibiting the adapters needed for the activation of caspases. Pro-apoptotic members potentially exert their effects by displacing the adapters from the pro-survival proteins; these proteins belong either to the Bax subfamily, which contain BH1-BH3, or to the BH3 subfamily, which mostly only feature BH3 []. Thus, the balance between antagonistic family members is believed to play a role in determining cell fate. Members of the wider Bcl-2 family, which also includes Bcl-x, Bcl-w and Mcl-1, are described by their similarity to Bcl-2 protein, a member of the pro-survival Bcl-2 subfamily []. Full-length Bcl-2 proteins feature all four BH domains, seven alpha-helices, and a C-terminal hydrophobic motif that targets the protein to the outer mitochondrial membrane, ER and nuclear envelope. Active cell suicide (apoptosis) is induced by events such as growth factor withdrawal and toxins. It is controlled by regulators, which have either an inhibitory effect on programmed cell death (anti-apoptotic) or block the protective effect of inhibitors (pro-apoptotic) [, ]. Many viruses have found a way of countering defensive apoptosis by encoding their own anti-apoptosis genes preventing their target-cells from dying too soon. All proteins belonging to the Bcl-2 family [] contain either a BH1, BH2, BH3, or BH4 domain. All anti-apoptotic proteins contain BH1 and BH2 domains, some of them contain an additional N-terminal BH4 domain (Bcl-2, Bcl-x(L), Bcl-w), which is never seen in pro-apoptotic proteins, except for Bcl-x(S). On the other hand, all pro-apoptotic proteins contain a BH3 domain (except for Bad) necessary for dimerisation with other proteins of Bcl-2 family and crucial for their killing activity, some of them also contain BH1 and BH2 domains (Bax, Bak). The BH3 domain is also present in some anti-apoptotic protein, such as Bcl-2 or Bcl-x(L). Proteins that are known to contain these domains include vertebrate Bcl-2 (alpha and beta isoforms) and Bcl-x (isoforms (Bcl-x(L) and Bcl-x(S)); mammalian proteins Bax and Bak; mouse protein Bid; Xenopus laevis proteins Xr1 and Xr11; human induced myeloid leukemia cell differentiation protein MCL1 and Caenorhabditis elegans protein ced-9.; GO: 0042981 regulation of apoptosis; PDB: 1AF3_A 2PON_B 1YSN_A 3PL7_B 3R85_A 2O2N_A 2P1L_C 1R2G_A 2O1Y_A 1BXL_A ....
Probab=25.19 E-value=68 Score=16.20 Aligned_cols=18 Identities=11% Similarity=0.130 Sum_probs=13.5
Q ss_pred ChHHHHHHHH-HhhcCCCC
Q 037220 12 SNEQILYLMV-EKRLNPHF 29 (101)
Q Consensus 12 TDeELi~~yL-~Ki~g~~~ 29 (101)
.-.|||..|+ -|+.-.-.
T Consensus 4 ~nR~lV~~yi~yKLsQrgy 22 (27)
T PF02180_consen 4 DNRELVEDYISYKLSQRGY 22 (27)
T ss_dssp HHHHHHHHHHHHHHHHTTS
T ss_pred cHHHHHHHHHHHHhhhcCC
Confidence 4579999999 88765443
No 34
>PF04700 Baculo_gp41: Structural glycoprotein p40/gp41 conserved region; InterPro: IPR006790 This is a family of viral structural glycoproteins [] from the baculoviridae.; GO: 0005198 structural molecule activity, 0019012 virion
Probab=24.39 E-value=46 Score=24.28 Aligned_cols=19 Identities=16% Similarity=0.219 Sum_probs=13.5
Q ss_pred ChHHHHHHHH---HhhcCCCCC
Q 037220 12 SNEQILYLMV---EKRLNPHFS 30 (101)
Q Consensus 12 TDeELi~~yL---~Ki~g~~~~ 30 (101)
+|||||.||- +|..|...+
T Consensus 6 sDe~Li~yY~~L~K~~g~~~~~ 27 (186)
T PF04700_consen 6 SDEELIEYYANLEKKYGGSDVP 27 (186)
T ss_pred cHHHHHHHHHHHHHHhCCCCCC
Confidence 7999999996 455554443
No 35
>PRK14390 hypothetical protein; Provisional
Probab=22.60 E-value=42 Score=20.25 Aligned_cols=15 Identities=20% Similarity=-0.004 Sum_probs=11.5
Q ss_pred CCCCceecCChHHHH
Q 037220 3 NLMGYKFQPSNEQIL 17 (101)
Q Consensus 3 lppG~rF~PTDeELi 17 (101)
+++-+||.||=-|=.
T Consensus 13 ~~~~CRf~PTCS~Ya 27 (63)
T PRK14390 13 FGPRCRFIPSCSSYG 27 (63)
T ss_pred CCCCCCcCccHHHHH
Confidence 578899999976543
No 36
>PF09758 FPL: Uncharacterised conserved protein; InterPro: IPR019155 The proteins in this family are functionally uncharacterised. They contain a highly conserved FPL motif.
Probab=21.51 E-value=50 Score=23.19 Aligned_cols=28 Identities=25% Similarity=0.472 Sum_probs=20.9
Q ss_pred ceecCChHHHHHHHH--HhhcCCCCCCCCc
Q 037220 7 YKFQPSNEQILYLMV--EKRLNPHFSHHPI 34 (101)
Q Consensus 7 ~rF~PTDeELi~~yL--~Ki~g~~~~~~~I 34 (101)
+.|.-+|||++.+|. -|.....+..+.|
T Consensus 79 ~~~d~~~ee~l~yYIsfLK~lSlkln~~tv 108 (149)
T PF09758_consen 79 YPFDFSDEEVLSYYISFLKTLSLKLNKDTV 108 (149)
T ss_pred cCCCCCcchhHHHHHHHHHHHHhhcCCCce
Confidence 568888999999998 6766666654433
No 37
>PF02436 PYC_OADA: Conserved carboxylase domain; InterPro: IPR003379 This domain represents a conserved region in pyruvate carboxylase (PYC) (6.4.1.1 from EC), oxaloacetate decarboxylase alpha chain (OADA) (4.1.1.3 from EC), and transcarboxylase 5s subunit (2.1.3.1 from EC). The domain is found adjacent to the HMGL-like domain (IPR000891 from INTERPRO) and often close to the biotin_lipoyl domain (IPR000089 from INTERPRO) of biotin requiring enzymes.; PDB: 2NX9_B 3HBL_A 3HB9_C 3HO8_A 3BG5_C 1S3H_A 1RQE_A 1U5J_A 1RQB_A 2QF7_B ....
Probab=21.29 E-value=78 Score=22.98 Aligned_cols=17 Identities=24% Similarity=0.475 Sum_probs=14.6
Q ss_pred cCChHHHHHHHH-HhhcC
Q 037220 10 QPSNEQILYLMV-EKRLN 26 (101)
Q Consensus 10 ~PTDeELi~~yL-~Ki~g 26 (101)
.+||||++.+.| |++.-
T Consensus 135 ~~~dedvlsyal~P~v~~ 152 (196)
T PF02436_consen 135 EPTDEDVLSYALFPKVAE 152 (196)
T ss_dssp TSCHHHHHHHHHCHHHHH
T ss_pred CCCHHHHHHHhcCchhHH
Confidence 479999999999 98764
No 38
>PF12913 SH3_6: SH3 domain of the SH3b1 type; PDB: 3M1U_B.
Probab=20.31 E-value=41 Score=19.61 Aligned_cols=40 Identities=13% Similarity=0.218 Sum_probs=22.0
Q ss_pred HhhcCCCCCCCCceeccCCCCCCccCcccccccCCCCceEEEEec
Q 037220 22 EKRLNPHFSHHPIKDIVDICSLEPGDLATASKTESEDQVWYFFCE 66 (101)
Q Consensus 22 ~Ki~g~~~~~~~I~e~~Dvy~~~Pw~L~~~~~~~~~~~~wYFF~~ 66 (101)
+...|+..|-+..++- -|.--+|--+...+ .|+.|+|--.
T Consensus 6 p~~~Geg~pFD~lQ~s-~l~~gtPv~i~H~S----~D~~W~fV~t 45 (54)
T PF12913_consen 6 PDLAGEGYPFDYLQNS-ALHPGTPVYILHTS----RDGAWAFVQT 45 (54)
T ss_dssp TTSTTTSTT--TTEEE-EE-TT-EEEEEEE-----TTSSEEEEE-
T ss_pred CCccCCCCCchhhhhc-ccCCCCCEEEEEEC----CCCCEEEEec
Confidence 5566777766666665 55555666555543 3678998743
No 39
>PF15374 CCDC71L: Coiled-coil domain-containing protein 71L
Probab=20.25 E-value=1e+02 Score=24.89 Aligned_cols=41 Identities=10% Similarity=0.182 Sum_probs=25.3
Q ss_pred CCCceecCChHHHHHHHHHhhcCCCCCCCCceeccCCCCCCcc
Q 037220 4 LMGYKFQPSNEQILYLMVEKRLNPHFSHHPIKDIVDICSLEPG 46 (101)
Q Consensus 4 ppG~rF~PTDeELi~~yL~Ki~g~~~~~~~I~e~~Dvy~~~Pw 46 (101)
|+--.|.=||.|||. ||.-+..+-+-..+..-- |||+|...
T Consensus 29 PmS~dl~~te~qLv~-Flq~Lr~eGfqP~ILrSk-DVYGYsSc 69 (376)
T PF15374_consen 29 PMSKDLSDTEAQLVA-FLQGLRHEGFQPTILRSK-DVYGYSSC 69 (376)
T ss_pred ccccccchhHHHHHH-HHHHHhhcCCCceeeccc-cccccccc
Confidence 444456679999997 663333332333356677 99987544
Done!